Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J9318_RS12485 Genome accession   NZ_CP072844
Coordinates   2752870..2754573 (-) Length   567 a.a.
NCBI ID   WP_210560218.1    Uniprot ID   -
Organism   Psychrosphaera aestuarii strain PSC101     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2747870..2759573
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J9318_RS12455 arfB 2748501..2748914 (-) 414 WP_210560212.1 alternative ribosome rescue aminoacyl-tRNA hydrolase ArfB -
  J9318_RS12460 yacG 2748916..2749146 (-) 231 WP_210560213.1 DNA gyrase inhibitor YacG -
  J9318_RS12465 - 2749158..2749907 (-) 750 WP_210560214.1 cell division protein ZapD -
  J9318_RS12470 coaE 2749968..2750624 (-) 657 WP_210560215.1 dephospho-CoA kinase -
  J9318_RS12475 pilD 2750641..2751537 (-) 897 WP_210560216.1 A24 family peptidase Machinery gene
  J9318_RS12480 pilC 2751612..2752847 (-) 1236 WP_210560217.1 type II secretion system F family protein Machinery gene
  J9318_RS12485 pilB 2752870..2754573 (-) 1704 WP_210560218.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J9318_RS12490 - 2754880..2755368 (-) 489 WP_210560219.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  J9318_RS12495 nadC 2755641..2756486 (-) 846 WP_210560220.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J9318_RS12500 - 2756625..2757143 (-) 519 WP_210560221.1 TIGR02281 family clan AA aspartic protease -
  J9318_RS12505 srmB 2757218..2758441 (-) 1224 WP_210560222.1 ATP-dependent RNA helicase SrmB -
  J9318_RS12510 - 2758538..2759389 (+) 852 WP_210560223.1 methyltransferase -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62476.32 Da        Isoelectric Point: 4.8665

>NTDB_id=556160 J9318_RS12485 WP_210560218.1 2752870..2754573(-) (pilB) [Psychrosphaera aestuarii strain PSC101]
MPNTYKGALLRQLLSHQLISDEDVEKAKANRSQYHSMPETLVAENIVSAENLVLFVSQRFGVPRFDISQFDIATIPEEVK
NEKLALKHQVLPVAKKGRTLFLATSDPTDVSAQEDFEFNTGMQTEFVVCEPGPLAAMIHHAFSSLEDGLGVDESDMFELA
DLETESIDTNENVNDESGSDDAPIVVYINKILMDAIRKGASDLHFEPYEKEYRIRFRVDGILTEVAKPPTALAGRLSARI
KVISNLDIAEKRKPQDGRIKLKISAKKSIDFRVSTLPTIWGEKVVMRILDSSSAMLGIDVLGYEEEQKRLYMEALEQPQG
MILVTGPTGSGKTVSLYTGLNILNTPERNISTAEDPVEINLSGINQVQMNVKAGLDFASALKAFLRQDPDIIMVGEIRDL
ETAEISIKAAQTGHLVLSTLHTNSAPETLTRLANMGVPAYNIASSVSLIIAQRLARRLCSKCKEPETDLPEQELIREGFS
QEQINTMTLFKPVGCNDCTNGYKGRVGIYEVLKLSERMRTIIMEGGNSLDIAKQADAEGVNNLRKSGLIKAASGMTSLTE
VNRVTNS

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=556160 J9318_RS12485 WP_210560218.1 2752870..2754573(-) (pilB) [Psychrosphaera aestuarii strain PSC101]
ATGCCAAATACGTACAAAGGTGCACTGCTTAGGCAGCTACTAAGCCATCAACTGATTTCGGATGAAGACGTTGAAAAAGC
CAAAGCAAATCGTAGCCAATACCATTCAATGCCAGAAACCTTGGTTGCTGAGAATATCGTCTCGGCGGAAAACCTTGTTT
TGTTTGTTAGTCAACGTTTTGGCGTGCCGCGTTTTGATATTAGCCAGTTTGATATCGCCACTATTCCTGAAGAGGTAAAA
AATGAAAAACTGGCGTTAAAACATCAAGTTTTACCTGTTGCTAAAAAAGGTCGAACTTTATTCTTAGCAACAAGCGATCC
TACCGACGTATCGGCACAAGAAGATTTTGAATTTAATACCGGCATGCAAACGGAGTTTGTAGTGTGTGAGCCGGGTCCGC
TTGCCGCTATGATCCATCATGCCTTTTCTTCACTCGAAGATGGTTTAGGCGTAGATGAAAGCGACATGTTTGAGTTGGCC
GACTTAGAAACTGAGTCAATAGATACCAACGAAAATGTCAATGATGAAAGTGGCTCAGACGATGCTCCAATCGTTGTTTA
CATTAACAAAATATTAATGGACGCCATTCGAAAAGGCGCGTCGGATTTGCATTTTGAACCATATGAAAAAGAATACCGAA
TTCGCTTTCGTGTTGATGGCATATTAACAGAAGTAGCAAAACCACCAACGGCATTAGCAGGGCGACTGTCAGCGCGTATA
AAAGTTATCTCAAATCTTGATATTGCCGAAAAGCGTAAGCCACAAGATGGGCGGATTAAGTTAAAAATTTCCGCTAAAAA
ATCCATCGATTTTCGTGTCAGTACGTTACCAACCATTTGGGGCGAAAAAGTGGTAATGCGTATCCTTGACTCATCAAGCG
CCATGTTAGGCATTGATGTACTCGGCTACGAAGAAGAGCAGAAGCGTTTGTACATGGAAGCACTTGAGCAACCACAAGGC
ATGATTTTGGTTACTGGGCCAACGGGTTCAGGTAAAACAGTATCACTTTATACCGGTTTAAATATTCTTAATACGCCAGA
GCGAAACATCTCAACGGCGGAAGATCCGGTAGAAATTAACTTATCAGGCATAAACCAAGTTCAAATGAATGTGAAGGCCG
GTTTAGACTTTGCTTCTGCGCTAAAAGCCTTTTTACGACAAGATCCAGACATCATCATGGTTGGTGAGATCCGAGACTTG
GAAACAGCCGAAATATCTATTAAAGCCGCGCAAACTGGTCACTTAGTTTTATCAACACTTCACACAAACTCAGCACCAGA
AACACTAACGCGTTTAGCTAACATGGGTGTGCCAGCATATAACATCGCTAGTTCCGTATCACTGATTATTGCGCAGCGAC
TCGCGCGTCGTTTATGCTCAAAATGTAAAGAGCCAGAAACGGACTTACCAGAGCAAGAACTTATTCGCGAAGGCTTTAGC
CAAGAACAAATTAATACCATGACGTTATTTAAGCCGGTTGGTTGTAATGATTGCACTAATGGCTACAAAGGCCGAGTTGG
TATTTATGAAGTTTTAAAACTAAGCGAACGCATGCGTACTATTATCATGGAAGGCGGTAACTCATTAGATATTGCCAAAC
AAGCGGACGCAGAAGGTGTTAATAATCTTCGTAAGTCAGGTTTGATTAAGGCCGCCTCCGGGATGACAAGCCTTACTGAA
GTTAACCGCGTAACAAACTCTTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(41-144)

Type II/IV secretion system protein (T2SSE)

(190-457)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilB Acinetobacter baumannii D1279779

56.306

99.295

0.559
  pilB Acinetobacter baylyi ADP1

54.561

100

0.548
  pilB Legionella pneumophila strain ERS1305867

55.882

95.944

0.536
  pilB Vibrio cholerae strain A1552

54.049

93.651

0.506
  pilB Vibrio parahaemolyticus RIMD 2210633

53.861

93.651

0.504
  pilB Vibrio campbellii strain DS40M4

53.471

94.004

0.503
  pilF Neisseria gonorrhoeae MS11

48.313

99.295

0.48
  pilF Thermus thermophilus HB27

37.205

97.178

0.362
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

42.008

86.067

0.362